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1. 发明授权

US5631135A Oligonucleotide N3'.fwdarw.P5' phosphoramidates: hybridization and nuclease resistance properties 失效
标题翻译：寡核苷酸N3' - > P5'氨基磷酸酯：杂交和核酸酶抗性
公开(公告)号：US5631135A
公开(公告)日：1997-05-20
申请号：US473015
申请日：1995-06-06
申请人： Sergei M. Gryaznov , Ronald G. Schultz , Jer-Kang Chen
发明人： Sergei M. Gryaznov , Ronald G. Schultz , Jer-Kang Chen
IPC分类号： C07H19/06 , C07H19/16 , C07H21/00 , C12Q1/68 , C07H21/04 , C12P19/34
CPC分类号： C07H19/06 , C07H19/16 , C07H21/00
摘要： Modified oligonucleotides 3'-NHP(O)(O.sup.-)O-5' phosphoramidates were synthesized on a solid phase support. The phosphoramidate analogs were found to have significantly increased resistance toward phosphodiesterase digestion. Thermal dissociation experiments demonstrated that these compounds form more stable duplexes than phosphodiesters with complementary DNA and particularly RNA strands. Further, the phosphoramidate analogs can also form stable triplexes with double-stranded DNA target, where under similar conditions parent phosphodiester compounds failed to do so.
摘要翻译：在固相载体上合成修饰的寡核苷酸3'-NHP（O）（O）O-5'氨基磷酸酯。发现氨基磷酸酯类似物对磷酸二酯酶消化具有显着增加的抗性。热解离实验表明，这些化合物比具有互补DNA特别是RNA链的磷酸二酯形成更稳定的双链体。此外，氨基磷酸酯类似物还可以形成具有双链DNA靶的稳定的三链体，其中在类似条件下，亲代磷酸二酯化合物不能这样做。

2. 发明授权

US5726297A Oligodeoxyribonucleotide N3' P5' phosphoramidates 失效
标题翻译：寡脱氧核糖核苷酸N 3'P 5'氨基磷酸酯
公开(公告)号：US5726297A
公开(公告)日：1998-03-10
申请号：US465368
申请日：1995-06-05
申请人： Sergei M. Gryaznov , Ronald G. Schultz , Jer-Kang Chen
发明人： Sergei M. Gryaznov , Ronald G. Schultz , Jer-Kang Chen
IPC分类号： C07H19/06 , C07H19/16 , C07H21/00 , C07H21/02 , C07H21/04 , C12Q1/68
CPC分类号： C07H19/06 , C07H19/16 , C07H21/00
摘要： Modified oligodeoxyribonucleotide 3'--NHP (O) (O.sup.-) O-5' phosphoramidates were synthesized on a solid phase support. The phosphoramidate analogs were found to have significantly increased resistance toward phosphodiesterase digestion. Thermal dissociation experiments demonstrated that these compounds form more stable duplexes than phosphodiesters with complementary DNA and particularly RNA strands. Further, the phosphoramidate analogs can also form stable triplexes with double-stranded DNA target, where under similar conditions parent phosphodiester compounds failed to do so.
摘要翻译：在固相载体上合成修饰的寡脱氧核糖核苷酸3'-NHP（O）（O）O-5'氨基磷酸酯。发现氨基磷酸酯类似物对磷酸二酯酶消化具有显着增加的抗性。热解离实验表明，这些化合物比具有互补DNA特别是RNA链的磷酸二酯形成更稳定的双链体。此外，氨基磷酸酯类似物还可以形成具有双链DNA靶的稳定的三链体，其中在类似条件下，亲代磷酸二酯化合物不能这样做。

3. 发明授权

US07364855B2 Methods and kits for methylation detection 有权
标题翻译：用于甲基化检测的方法和试剂盒
公开(公告)号：US07364855B2
公开(公告)日：2008-04-29
申请号：US11119985
申请日：2005-05-02
申请人： Mark R. Andersen , Jer-Kang Chen , Michael W. Hunkapiller , Steven M. Menchen
发明人： Mark R. Andersen , Jer-Kang Chen , Michael W. Hunkapiller , Steven M. Menchen
IPC分类号： C12Q1/68 , C07H21/02 , C07H21/04
CPC分类号： C12Q1/68 , C12Q1/6827 , C12Q1/6862 , C12Q2537/164 , C12Q2521/501
摘要： Ligation-based methods and kits are disclosed for determining the degree of methylation of one or more target nucleotides. In certain embodiments, the methylation status of one or more target nucleotides is determined by generating misligation products. In certain embodiments, at least one target nucleotide is amplified prior to the ligation reaction. In certain embodiments, at least one ligation product, at least one ligation product surrogate, at least one misligation product, at least one misligation product surrogate, or combinations thereof are amplified. In certain embodiments, one or more ligation probes comprise at least one nucleotide analog, at least one Modification, at least one mismatched nucleotide, or combinations thereof.
摘要翻译：公开了基于连接的方法和试剂盒以确定一个或多个靶核苷酸的甲基化程度。在某些实施方案中，通过产生错误产物来确定一个或多个靶核苷酸的甲基化状态。在某些实施方案中，在连接反应之前扩增至少一种靶核苷酸。在某些实施方案中，扩增至少一种连接产物，至少一种连接产物替代物，至少一种错误产物，至少一种错误产物替代物或其组合。在某些实施方案中，一个或多个连接探针包含至少一个核苷酸类似物，至少一个修饰，至少一个错配核苷酸或其组合。

4. 发明授权

US07501284B2 Apparatus and method for specific release of captured extension products 有权
公开(公告)号：US07501284B2
公开(公告)日：2009-03-10
申请号：US09908994
申请日：2001-07-17
申请人： John Shigeura , Jer-Kang Chen
发明人： John Shigeura , Jer-Kang Chen
IPC分类号： G01N33/00 , G01N25/20 , C12M1/36 , C07H21/04 , B01L3/00
CPC分类号： C12Q1/6874 , C07B2200/11 , C12N15/101 , C12Q1/6834 , C12Q1/6837 , C40B40/00 , G01N1/405 , G01N30/02 , G01N30/466 , G01N30/50 , G01N30/6043 , G01N30/6047 , G01N30/6052 , G01N30/6065 , G01N30/6069 , G01N30/6091 , G01N2030/3061 , G01N2030/521 , G01N2030/528 , G01N2030/562 , Y10T436/143333 , G01N2030/0035 , G01N30/463
摘要： Apparatus and methods for separating different polynucleotide populations in a mixture are provided, wherein different polynucleotides or polynucleotide populations are captured on different solid support. After hybridization, polynucleotides are selectively released from a selected support by altering a physical property of that support. The released polynucleotides can be eluted from a common flow path and isolated.

5. 发明申请

US20080091005A1 MODIFIED NUCLEOTIDES, METHODS FOR MAKING AND USING SAME 审中-公开
标题翻译：改性核子，制备和使用方法
公开(公告)号：US20080091005A1
公开(公告)日：2008-04-17
申请号：US11781160
申请日：2007-07-20
申请人： Hongyi Wang , Xiaolian Gao , Peilin Yu , Mitsu Reddy , Susan Hardin , Tommie Lincecum , Amy Williams , Norha Deluge , Yuri Belosludtsev , Steven Menchen , Joe Lam , Jer-Kang Chen
发明人： Hongyi Wang , Xiaolian Gao , Peilin Yu , Mitsu Reddy , Susan Hardin , Tommie Lincecum , Amy Williams , Norha Deluge , Yuri Belosludtsev , Steven Menchen , Joe Lam , Jer-Kang Chen
IPC分类号： C07H21/04
CPC分类号： C07H21/04
摘要： Modified nucleotides are disclosed for use in single molecule sequencing, methods for making the modified nucleotides and method for using the modified nucleotides. Linkers for making the modified nucleotide are also disclosed.
摘要翻译：公开了用于单分子测序的修饰的核苷酸，用于制备修饰的核苷酸的方法和使用修饰的核苷酸的方法。还公开了用于制备修饰的核苷酸的接头。

6. 发明授权

US06514699B1 Multiplex polynucleotide capture methods and compositions 有权
公开(公告)号：US06514699B1
公开(公告)日：2003-02-04
申请号：US09593312
申请日：2000-06-13
申请人： Roger A. O'Neill , Jer-Kang Chen , Claudia Chiesa , George Fry
发明人： Roger A. O'Neill , Jer-Kang Chen , Claudia Chiesa , George Fry
IPC分类号： C12Q168
CPC分类号： C12Q1/6874 , C12Q2565/514 , C12Q2537/157 , C12Q2525/161 , C12Q2565/629
摘要： The invention relates to methods and compositions for simultaneously generating a plurality of polynucleotide sequencing ladders or PCR amplification products. Each sequencing ladder is generated from a recoverable primer, i.e., an oligonucleotide primer comprising a recovery tag. The recovery tag may be an oligonucleotide. Each sequencing ladder has a unique recovery tag. After the generation of the multiple sequencing ladders, the different sequencing ladders are separated from one another, i.e., purified, by binding to recovery tag binding compounds that have been immobilized on one or more solid supports. The recovery tag binding compounds are immobilized on the solid support in an addressable manner, i.e., the recovery tag binding compounds have distinct locations on the solid support. The binding of the sequencing ladders to the recovery tag binding compounds serves to separate the different polynucleotide sequencing ladders present in a given solution. The separated sequencing ladders may then be released from the immobilized recovery tag binding compounds and subsequently resolved into individual components of the sequencing ladders or PCR products. The subject methods of separating sequencing ladders simultaneously generated in the same vessel may readily be adapted to separate a plurality of simultaneously generated polynucleotide amplification products. Other aspects of the invention are kits for the generation or recovery of a plurality of polynucleotide sequencing ladders or amplification products. The kits comprise a plurality of recoverable primers having unique recovery tags. Preferably, the recovery tags are polynucleotides that have substantially the same denaturation temperature when bound to appropriate recovery tag binding compounds, i.e., the primers comprise an integrated set. The kits may further comprise recovery tag binding compounds. The kits may further comprise labeled chain terminators. Other aspects of the invention include polynucleotide recovery devices.

7. 发明申请

US20090269759A1 UNNATURAL POLYMERASE SUBSTRATES THAT CAN SUSTAIN ENZYMATIC SYNTHESIS OF DOUBLE STRANDED NUCLEIC ACIDS FROM A NUCLEIC ACID TEMPLATE AND METHODS OF USE 有权
标题翻译：可以从核酸模板维持双重拉伸的核酸的酶合成和使用方法的UNNATURAL POLYMERASE底物
公开(公告)号：US20090269759A1
公开(公告)日：2009-10-29
申请号：US12355487
申请日：2009-01-16
申请人： Steven M. Menchen, JR. , Barnett Rosenblum , Paul Kenney , Shoeb I. Khan , Zhaochun Ma , Jer-Kang Chen , Joe Lam , Boli Huang
发明人： Steven M. Menchen, JR. , Barnett Rosenblum , Paul Kenney , Shoeb I. Khan , Zhaochun Ma , Jer-Kang Chen , Joe Lam , Boli Huang
IPC分类号： C12Q1/68 , C07F9/02
CPC分类号： C07H21/04 , C07H19/073 , C07H19/173 , C12Q1/6874 , C12Q2523/107 , C12Q2525/186 , C12Q2525/197
摘要： Nucleotide analogs that can sustain the enzymatic synthesis of double-stranded nucleic acid from a nucleic template are described. The nucleotide analogs include: (i) a base selected from the group consisting of adenine, guanine, cytosine, thymine, uracil and their analogs; (ii) a label attached to the base or analog of the base via a cleavable linker; (iii) a deoxyribose; and (iv) one or more phosphate groups. The linker and/or the label inhibits template directed polymerase incorporation of a further nucleotide substrate onto an extended primer strand. In addition, cleavage of the linker leaves a residue attached to the base which is not present in the natural nucleotide and which does not inhibit extension of the primer strand. The nucleotide analogs can therefore be used as reversible terminators in sequencing by synthesis methods without blocking the 3′ hydroxyl group. Methods of sequencing DNA using the substrates are also described.
摘要翻译：描述了可以维持来自核酸模板的双链核酸的酶合成的核苷酸类似物。核苷酸类似物包括：（i）选自腺嘌呤，鸟嘌呤，胞嘧啶，胸腺嘧啶，尿嘧啶及其类似物的碱基; （ii）通过可切割连接体连接到碱基或类似物的标签; （iii）脱氧核糖; 和（iv）一个或多个磷酸酯基团。接头和/或标记物将另外的核苷酸底物的模板定向聚合酶掺入到延伸的引物链上。此外，接头的切割物留下连接到碱基上的残基，其不存在于天然核苷酸中，并且不抑制引物链的延伸。因此，核苷酸类似物因此可以通过合成方法进行测序而不会阻断3'羟基作为可逆终止子。还描述了使用底物测序DNA的方法。

8. 发明授权

US06638760B1 Method and apparatus for flow-through hybridization 有权
标题翻译：流通杂交的方法和装置
公开(公告)号：US06638760B1
公开(公告)日：2003-10-28
申请号：US09204865
申请日：1998-12-03
申请人： Jer-Kang Chen , Claudia Chiesa , George A. Fry , Vergine C. Furniss , Stephen M. Lambert , Roger O'Neill , Majid Mehrpouyan
发明人： Jer-Kang Chen , Claudia Chiesa , George A. Fry , Vergine C. Furniss , Stephen M. Lambert , Roger O'Neill , Majid Mehrpouyan
IPC分类号： C12M134
CPC分类号： C12Q1/6834 , C12Q1/6837 , C12Q2565/629 , C12Q2565/507 , C12Q2525/197
摘要： The present invention provides substrates and apparatuses for efficient, rapid and specific capture, and optimal recovery, of nucleic acids, as well as methods of their use. The substrate is porous in nature and has a capture polynucleotide capable of hybridizing to a target nucleic acid immobilized thereon. Upon flowing a sample containing or suspected of containing the target nucleic acid through the porous substrate, the target nucleic acid is rapidly captured. Following capture, the target nucleic acid can be efficiently recovered for subsequent use.
摘要翻译：本发明提供了用于核酸的有效，快速和特异性捕获以及最佳回收的底物和装置，以及其使用方法。底物本质上是多孔的，并且具有能够固定在其上的靶核酸杂交的捕获多核苷酸。当含有或怀疑含有靶核酸的样品通过多孔底物流动时，靶核酸被快速捕获。捕获后，靶核酸可以有效地回收以备后续使用。

9. 发明申请

US20090186779A1 DIAMOND-BASED ARRAY ELECTRODE 审中-公开
标题翻译：基于金刚石的阵列电极
公开(公告)号：US20090186779A1
公开(公告)日：2009-07-23
申请号：US12417855
申请日：2009-04-03
申请人： Timothy Z. Liu , Timothy Woudenberg , Jer-Kang Chen
发明人： Timothy Z. Liu , Timothy Woudenberg , Jer-Kang Chen
IPC分类号： C40B40/06 , C40B40/04 , C40B40/10 , C40B40/12 , C40B50/18
CPC分类号： B01J19/0046 , B01J2219/00527 , B01J2219/00596 , B01J2219/00608 , B01J2219/0061 , B01J2219/00612 , B01J2219/00626 , B01J2219/00653 , B01J2219/00659 , B01J2219/00722 , C40B40/06
摘要： An array comprising a probe covalently attached to a diamond substrate is fabricated, for example, by treating the diamond substrate with an aryl diazonium compound and covalently attaching the probe to the aryl group. Some embodiments are useful in DNA-based sensing applications.
摘要翻译：包含共价连接到金刚石基底的探针的阵列例如通过用芳基重氮化合物处理金刚石基底并将探针共价连接到芳基来制备。一些实施方案在基于DNA的感测应用中是有用的。

10. 发明申请

US20050266458A1 Methods and kits for methylation detection 有权
标题翻译：用于甲基化检测的方法和试剂盒
公开(公告)号：US20050266458A1
公开(公告)日：2005-12-01
申请号：US11119985
申请日：2005-05-02
申请人： Mark Andersen , Jer-Kang Chen , Michael Hunkapiller , Steven Menchen
发明人： Mark Andersen , Jer-Kang Chen , Michael Hunkapiller , Steven Menchen
IPC分类号： C12Q1/68
CPC分类号： C12Q1/68 , C12Q1/6827 , C12Q1/6862 , C12Q2537/164 , C12Q2521/501
摘要： Ligation-based methods and kits are disclosed for determining the degree of methylation of one or more target nucleotides. In certain embodiments, the methylation status of one or more target nucleotides is determined by generating misligation products. In certain embodiments, at least one target nucleotide is amplified prior to the ligation reaction. In certain embodiments, at least one ligation product, at least one ligation product surrogate, at least one misligation product, at least one misligation product surrogate, or combinations thereof are amplified. In certain embodiments, one or more ligation probes comprise at least one nucleotide analog, at least one Modification, at least one mismatched nucleotide, or combinations thereof.
摘要翻译：公开了基于连接的方法和试剂盒以确定一个或多个靶核苷酸的甲基化程度。在某些实施方案中，通过产生错误产物来确定一个或多个靶核苷酸的甲基化状态。在某些实施方案中，在连接反应之前扩增至少一种靶核苷酸。在某些实施方案中，扩增至少一种连接产物，至少一种连接产物替代物，至少一种错误产物，至少一种错误产物替代物或其组合。在某些实施方案中，一个或多个连接探针包含至少一个核苷酸类似物，至少一个修饰，至少一个错配核苷酸或其组合。

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